data_5DLP
#
_model_server_result.job_id            HAi4o8hSpLVqguRRnVfJFg 
_model_server_result.datetime_utc      '2024-11-28 03:18:49' 
_model_server_result.server_version    0.9.12 
_model_server_result.query_name        ligand 
_model_server_result.source_id         pdb-bcif 
_model_server_result.entry_id          5dlp 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"E","auth_seq_id":602}' 
#
_entry.id    5DLP 
#
_exptl.entry_id    5DLP 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              221.208 
_entity.id                          5 
_entity.src_method                  man 
_entity.type                        non-polymer 
_entity.pdbx_description            2-acetamido-2-deoxy-beta-D-glucopyranose 
_entity.pdbx_number_of_molecules    1 
_entity.pdbx_parent_entity_id       . 
_entity.pdbx_mutation               ? 
_entity.pdbx_fragment               ? 
_entity.pdbx_ec                     ? 
#
_cell.angle_alpha         90 
_cell.angle_beta          90 
_cell.angle_gamma         120 
_cell.entry_id            5DLP 
_cell.length_a            111.059 
_cell.length_b            111.059 
_cell.length_c            137.172 
_cell.Z_PDB               6 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 5DLP 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        152 
_symmetry.space_group_name_Hall    . 
_symmetry.space_group_name_H-M     'P 31 2 1' 
#
_pdbx_struct_assembly.method_details        PISA 
_pdbx_struct_assembly.oligomeric_details    dimeric 
_pdbx_struct_assembly.oligomeric_count      2 
_pdbx_struct_assembly.details               author_and_software_defined_assembly 
_pdbx_struct_assembly.id                    1 
#
_pdbx_struct_assembly_gen.asym_id_list       A,B,C,D,E,F,G,H,I,J,K,L,M,N,O,P,Q,R,S,T,U 
_pdbx_struct_assembly_gen.assembly_id        1 
_pdbx_struct_assembly_gen.oper_expression    1,2 
#
loop_
_pdbx_struct_oper_list.id
_pdbx_struct_oper_list.type
_pdbx_struct_oper_list.name
_pdbx_struct_oper_list.symmetry_operation
_pdbx_struct_oper_list.matrix[1][1]
_pdbx_struct_oper_list.matrix[1][2]
_pdbx_struct_oper_list.matrix[1][3]
_pdbx_struct_oper_list.matrix[2][1]
_pdbx_struct_oper_list.matrix[2][2]
_pdbx_struct_oper_list.matrix[2][3]
_pdbx_struct_oper_list.matrix[3][1]
_pdbx_struct_oper_list.matrix[3][2]
_pdbx_struct_oper_list.matrix[3][3]
_pdbx_struct_oper_list.vector[1]
_pdbx_struct_oper_list.vector[2]
_pdbx_struct_oper_list.vector[3]
1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 
2 'crystal symmetry operation' 6_555 -x,-x+y,-z+1/3 -0.5 -0.866025 0 -0.866025 0.5 0 0 0 -1 0 0 45.724 
#
_struct_asym.details                        ? 
_struct_asym.entity_id                      5 
_struct_asym.id                             E 
_struct_asym.pdbx_modified                  N 
_struct_asym.pdbx_blank_PDB_chainid_flag    N 
#
loop_
_pdbx_entity_branch.entity_id
_pdbx_entity_branch.type
2 oligosaccharide 
3 oligosaccharide 
#
loop_
_pdbx_entity_branch_link.link_id
_pdbx_entity_branch_link.details
_pdbx_entity_branch_link.entity_id
_pdbx_entity_branch_link.entity_branch_list_num_1
_pdbx_entity_branch_link.entity_branch_list_num_2
_pdbx_entity_branch_link.comp_id_1
_pdbx_entity_branch_link.comp_id_2
_pdbx_entity_branch_link.atom_id_1
_pdbx_entity_branch_link.leaving_atom_id_1
_pdbx_entity_branch_link.atom_stereo_config_1
_pdbx_entity_branch_link.atom_id_2
_pdbx_entity_branch_link.leaving_atom_id_2
_pdbx_entity_branch_link.atom_stereo_config_2
_pdbx_entity_branch_link.value_order
1 ? 2 2 1 FUC NAG C1 O1 . O6 HO6 . sing 
2 ? 3 2 1 NAG NAG C1 O1 . O4 HO4 . sing 
3 ? 3 3 2 BMA NAG C1 O1 . O4 HO4 . sing 
4 ? 3 4 3 MAN BMA C1 O1 . O3 HO3 . sing 
5 ? 3 5 4 MAN MAN C1 O1 . O2 HO2 . sing 
#
loop_
_pdbx_branch_scheme.entity_id
_pdbx_branch_scheme.hetero
_pdbx_branch_scheme.asym_id
_pdbx_branch_scheme.mon_id
_pdbx_branch_scheme.num
_pdbx_branch_scheme.pdb_asym_id
_pdbx_branch_scheme.pdb_seq_num
_pdbx_branch_scheme.pdb_mon_id
_pdbx_branch_scheme.auth_asym_id
_pdbx_branch_scheme.auth_seq_num
_pdbx_branch_scheme.auth_mon_id
2 n B NAG 1 B 1 NAG A 1536 NAG 
2 n B FUC 2 B 2 FUC A 2106 FUC 
3 n C NAG 1 C 1 NAG A 1539 NAG 
3 n C NAG 2 C 2 NAG A 2107 NAG 
3 n C BMA 3 C 3 BMA A 2108 BMA 
3 n C MAN 4 C 4 MAN A 2109 MAN 
3 n C MAN 5 C 5 MAN A 2110 MAN 
#
loop_
_struct_conn.conn_type_id
_struct_conn.details
_struct_conn.id
_struct_conn.ptnr1_label_asym_id
_struct_conn.ptnr1_label_atom_id
_struct_conn.ptnr1_label_comp_id
_struct_conn.ptnr1_label_seq_id
_struct_conn.ptnr1_auth_asym_id
_struct_conn.ptnr1_auth_comp_id
_struct_conn.ptnr1_auth_seq_id
_struct_conn.ptnr1_symmetry
_struct_conn.ptnr2_label_asym_id
_struct_conn.ptnr2_label_atom_id
_struct_conn.ptnr2_label_comp_id
_struct_conn.ptnr2_label_seq_id
_struct_conn.ptnr2_auth_asym_id
_struct_conn.ptnr2_auth_comp_id
_struct_conn.ptnr2_auth_seq_id
_struct_conn.ptnr2_symmetry
_struct_conn.pdbx_ptnr1_PDB_ins_code
_struct_conn.pdbx_ptnr1_label_alt_id
_struct_conn.pdbx_ptnr1_standard_comp_id
_struct_conn.pdbx_ptnr2_PDB_ins_code
_struct_conn.pdbx_ptnr2_label_alt_id
_struct_conn.pdbx_ptnr3_PDB_ins_code
_struct_conn.pdbx_ptnr3_label_alt_id
_struct_conn.pdbx_ptnr3_label_asym_id
_struct_conn.pdbx_ptnr3_label_atom_id
_struct_conn.pdbx_ptnr3_label_comp_id
_struct_conn.pdbx_ptnr3_label_seq_id
_struct_conn.pdbx_PDB_id
_struct_conn.pdbx_dist_value
_struct_conn.pdbx_value_order
disulf ? disulf1 A SG CYS 67 A CYS 67 1_555 A SG CYS 94 A CYS 94 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.042 ? 
disulf ? disulf2 A SG CYS 254 A CYS 254 1_555 A SG CYS 265 A CYS 265 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? 
disulf ? disulf3 A SG CYS 402 A CYS 402 1_555 A SG CYS 521 A CYS 521 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? 
covale ? covale1 A ND2 ASN 59 A ASN 59 1_555 B C1 NAG . B NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.458 ? 
covale ? covale2 A ND2 ASN 416 A ASN 416 1_555 E C1 NAG . A NAG 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.454 ? 
covale ? covale3 A ND2 ASN 457 A ASN 457 1_555 C C1 NAG . C NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.463 ? 
covale ? covale4 B O6 NAG . B NAG 1 1_555 B C1 FUC . B FUC 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.446 ? 
covale ? covale5 C O4 NAG . C NAG 1 1_555 C C1 NAG . C NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.454 ? 
covale ? covale6 C O4 NAG . C NAG 2 1_555 C C1 BMA . C BMA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.449 ? 
covale ? covale7 C O3 BMA . C BMA 3 1_555 C C1 MAN . C MAN 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.463 ? 
covale ? covale8 C O2 MAN . C MAN 4 1_555 C C1 MAN . C MAN 5 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.452 ? 
#
_chem_comp.formula           'C8 H15 N O6' 
_chem_comp.formula_weight    221.208 
_chem_comp.id                NAG 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              2-acetamido-2-deoxy-beta-D-glucopyranose 
_chem_comp.type              'd-saccharide, beta linking' 
_chem_comp.pdbx_synonyms     N-acetyl-beta-D-glucosamine;2-acetamido-2-deoxy-beta-D-glucose;2-acetamido-2-deoxy-D-glucose;2-acetamido-2-deoxy-glucose;N-ACETYL-D-GLUCOSAMINE 
#
loop_
_chem_comp_bond.atom_id_1
_chem_comp_bond.atom_id_2
_chem_comp_bond.comp_id
_chem_comp_bond.value_order
_chem_comp_bond.pdbx_ordinal
_chem_comp_bond.pdbx_stereo_config
_chem_comp_bond.pdbx_aromatic_flag
C1 C2 NAG sing 348 n n 
C1 O1 NAG sing 349 n n 
C1 O5 NAG sing 350 n n 
C1 H1 NAG sing 351 n n 
C2 C3 NAG sing 352 n n 
C2 N2 NAG sing 353 n n 
C2 H2 NAG sing 354 n n 
C3 C4 NAG sing 355 n n 
C3 O3 NAG sing 356 n n 
C3 H3 NAG sing 357 n n 
C4 C5 NAG sing 358 n n 
C4 O4 NAG sing 359 n n 
C4 H4 NAG sing 360 n n 
C5 C6 NAG sing 361 n n 
C5 O5 NAG sing 362 n n 
C5 H5 NAG sing 363 n n 
C6 O6 NAG sing 364 n n 
C6 H61 NAG sing 365 n n 
C6 H62 NAG sing 366 n n 
C7 C8 NAG sing 367 n n 
C7 N2 NAG sing 368 n n 
C7 O7 NAG doub 369 n n 
C8 H81 NAG sing 370 n n 
C8 H82 NAG sing 371 n n 
C8 H83 NAG sing 372 n n 
N2 HN2 NAG sing 373 n n 
O1 HO1 NAG sing 374 n n 
O3 HO3 NAG sing 375 n n 
O4 HO4 NAG sing 376 n n 
O6 HO6 NAG sing 377 n n 
#
loop_
_pdbx_chem_comp_identifier.comp_id
_pdbx_chem_comp_identifier.identifier
_pdbx_chem_comp_identifier.type
_pdbx_chem_comp_identifier.program
_pdbx_chem_comp_identifier.program_version
NAG DGlcpNAcb 'CONDENSED IUPAC CARBOHYDRATE SYMBOL' GMML 1 
NAG N-acetyl-b-D-glucopyranosamine 'COMMON NAME' GMML 1 
NAG b-D-GlcpNAc 'IUPAC CARBOHYDRATE SYMBOL' PDB-CARE 1 
NAG GlcNAc 'SNFG CARBOHYDRATE SYMBOL' GMML 1 
#
_atom_sites.entry_id                     5DLP 
_atom_sites.fract_transf_matrix[1][1]    0.009004 
_atom_sites.fract_transf_matrix[1][2]    0.005199 
_atom_sites.fract_transf_matrix[1][3]    0 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.010397 
_atom_sites.fract_transf_matrix[2][3]    0 
_atom_sites.fract_transf_matrix[3][1]    0 
_atom_sites.fract_transf_matrix[3][2]    0 
_atom_sites.fract_transf_matrix[3][3]    0.00729 
_atom_sites.fract_transf_vector[1]       0 
_atom_sites.fract_transf_vector[2]       0 
_atom_sites.fract_transf_vector[3]       0 
#
loop_
_pdbx_nonpoly_scheme.asym_id
_pdbx_nonpoly_scheme.entity_id
_pdbx_nonpoly_scheme.mon_id
_pdbx_nonpoly_scheme.pdb_strand_id
_pdbx_nonpoly_scheme.ndb_seq_num
_pdbx_nonpoly_scheme.pdb_seq_num
_pdbx_nonpoly_scheme.auth_seq_num
_pdbx_nonpoly_scheme.pdb_mon_id
_pdbx_nonpoly_scheme.auth_mon_id
_pdbx_nonpoly_scheme.pdb_ins_code
D 4 MBT A 1 601 1540 MBT MBT . 
E 5 NAG A 1 602 1537 NAG NAG . 
F 6 SO4 A 1 603 701 SO4 SO4 . 
G 6 SO4 A 1 604 702 SO4 SO4 . 
H 6 SO4 A 1 605 703 SO4 SO4 . 
I 6 SO4 A 1 606 704 SO4 SO4 . 
J 6 SO4 A 1 607 705 SO4 SO4 . 
K 6 SO4 A 1 608 706 SO4 SO4 . 
L 6 SO4 A 1 609 707 SO4 SO4 . 
M 6 SO4 A 1 610 708 SO4 SO4 . 
N 6 SO4 A 1 611 709 SO4 SO4 . 
O 6 SO4 A 1 612 710 SO4 SO4 . 
P 6 SO4 A 1 613 711 SO4 SO4 . 
Q 6 SO4 A 1 614 712 SO4 SO4 . 
R 6 SO4 A 1 615 713 SO4 SO4 . 
S 6 SO4 A 1 616 714 SO4 SO4 . 
T 6 SO4 A 1 617 715 SO4 SO4 . 
U 7 HOH A 1 701 611 HOH HOH . 
U 7 HOH A 2 702 603 HOH HOH . 
U 7 HOH A 3 703 606 HOH HOH . 
U 7 HOH A 4 704 614 HOH HOH . 
U 7 HOH A 5 705 605 HOH HOH . 
U 7 HOH A 6 706 607 HOH HOH . 
U 7 HOH A 7 707 604 HOH HOH . 
U 7 HOH A 8 708 608 HOH HOH . 
U 7 HOH A 9 709 613 HOH HOH . 
U 7 HOH A 10 710 609 HOH HOH . 
U 7 HOH A 11 711 615 HOH HOH . 
U 7 HOH A 12 712 602 HOH HOH . 
U 7 HOH A 13 713 610 HOH HOH . 
U 7 HOH A 14 714 612 HOH HOH . 
U 7 HOH A 15 715 601 HOH HOH . 
#
loop_
_atom_site.group_PDB
_atom_site.id
_atom_site.type_symbol
_atom_site.label_atom_id
_atom_site.label_comp_id
_atom_site.label_seq_id
_atom_site.label_alt_id
_atom_site.pdbx_PDB_ins_code
_atom_site.label_asym_id
_atom_site.label_entity_id
_atom_site.Cartn_x
_atom_site.Cartn_y
_atom_site.Cartn_z
_atom_site.occupancy
_atom_site.B_iso_or_equiv
_atom_site.pdbx_formal_charge
_atom_site.auth_atom_id
_atom_site.auth_comp_id
_atom_site.auth_seq_id
_atom_site.auth_asym_id
_atom_site.pdbx_PDB_model_num
HETATM 1 C C1 NAG . . . E 5 -44.217 47.425 -11.978 0.78 43.49 ? C1 NAG 602 A 1 
HETATM 2 C C2 NAG . . . E 5 -43.388 48.714 -11.925 0.78 43.76 ? C2 NAG 602 A 1 
HETATM 3 C C3 NAG . . . E 5 -43.655 49.534 -13.178 0.78 44.88 ? C3 NAG 602 A 1 
HETATM 4 C C4 NAG . . . E 5 -43.263 48.687 -14.381 0.78 45.44 ? C4 NAG 602 A 1 
HETATM 5 C C5 NAG . . . E 5 -44.164 47.45 -14.398 0.78 45.63 ? C5 NAG 602 A 1 
HETATM 6 C C6 NAG . . . E 5 -43.9 46.586 -15.641 0.78 46.59 ? C6 NAG 602 A 1 
HETATM 7 C C7 NAG . . . E 5 -42.986 49.365 -9.591 0.78 42.99 ? C7 NAG 602 A 1 
HETATM 8 C C8 NAG . . . E 5 -43.388 50.253 -8.449 0.78 41.83 ? C8 NAG 602 A 1 
HETATM 9 N N2 NAG . . . E 5 -43.664 49.512 -10.737 0.78 42.98 ? N2 NAG 602 A 1 
HETATM 10 O O3 NAG . . . E 5 -42.919 50.734 -13.148 0.78 46.1 ? O3 NAG 602 A 1 
HETATM 11 O O4 NAG . . . E 5 -43.311 49.439 -15.579 0.78 45.07 ? O4 NAG 602 A 1 
HETATM 12 O O5 NAG . . . E 5 -43.961 46.718 -13.191 0.78 44.5 ? O5 NAG 602 A 1 
HETATM 13 O O6 NAG . . . E 5 -43.796 45.205 -15.35 0.78 48.57 ? O6 NAG 602 A 1 
HETATM 14 O O7 NAG . . . E 5 -42.075 48.549 -9.43 0.78 42.87 ? O7 NAG 602 A 1 
#
_model_server_stats.io_time_ms              16 
_model_server_stats.parse_time_ms           10 
_model_server_stats.create_model_time_ms    4 
_model_server_stats.query_time_ms           314 
_model_server_stats.encode_time_ms          3 
_model_server_stats.element_count           14 
#